Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Brd4

Cell type

Cell type Class
Blood
Cell type
B cells
NA
NA

Attributes by original data submitter

Sample

source_name
Purified Primary B cells
cell type and stimulation
B cells stimulated with LPS
strain
C57BL/6
chip antibody
Bethyl Brd4 (A301-985A100)
treatment
untreated

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNA-seq: RNA was extracted using Qiagen RNeasy Mini kit and gDNA was removed using Qiagen RNAse-Free DNAse set. RNA-seq: 3'mRNA-sequencing libraries were prepared from 100ng of total RNA using the QuantSeq 3' mRNA-Seq Library Prep Kit (Lexogen) according to the manufacturers instructions and sequenced on the NextSeq 500 (Illumina). ChIP-seq: Lysates were clarified from sonicated nuclei and Brd4-DNA or H3K27ac-DNA complexes were isolated with antibody. DNA product was purified using Zymo ChIP DNA Clean and Concetrator Kit. ChIP-seq: ChIP-enriched DNA was processed and sequenced using NEBnext Ultra II kit according to manufacturer's instructions on Nextseq500 (Illumina).

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
31727274
Reads aligned (%)
96.6
Duplicates removed (%)
10.8
Number of peaks
8260 (qval < 1E-05)

mm9

Number of total reads
31727274
Reads aligned (%)
96.4
Duplicates removed (%)
10.8
Number of peaks
8254 (qval < 1E-05)

Base call quality data from DBCLS SRA